GGREENBERG.HILFINGER@BIONET-20.BIO.NET (John Hilfinger) (04/23/89)
Could someone tell me where I might get the UUDECODE and PKUNPAK programs needed to decode and unpack M. Zuker's PCFOLD program. Once decoded, can ARC substitute for PKUNPAK? Thanks in advance. John Hilfinger John_Hilf@um.cc.umich.edu -------
BROE@AARDVARK.UCS.UOKNOR.EDU (Bruce Roe) (04/23/89)
A recent posting from John Hilfinger requested info regarding file compression-decompression programs and their availability as follows: >Date: Sat 22 Apr 89 12:12:56-PDT >From: John Hilfinger <GGREENBERG.HILFINGER@bionet-20.bio.net> >Subject: uudecode and pkunpak >To: contributed-software@bionet-20.bio.net >Cc: pc-software@bionet-20.bio.net >Message-Id: <12488225756.19.GGREENBERG.HILFINGER@BIONET-20.BIO.NET> >Could someone tell me where I might get the UUDECODE and PKUNPAK programs >needed to decode and unpack M. Zuker's PCFOLD program. Once decoded, can >ARC substitute for PKUNPAK? Thanks in advance. >John Hilfinger >John_Hilf@um.cc.umich.edu Dear John, Last question first. Most likely you cannot substitute PKARC for PKUMPAK, but why use ARC when PKUNPAK is specifically what was used to pack the file?? There are many such programs and in my limited experience it is best to use what is recommended, especially with binary files. You can obtain the files you asked about from BIONET. They are available by ANOMYNOUS ftp to net.bio.net. Once you logon to net.bio.net and see the * prompt you should type: cd public The dir command will show you what is in the public directory: *dir <PORT command successful. <Opening ASCII mode data connection for /bin/ls (0 bytes). <Transfer complete. total 8 drwxr-sr-x 2 0 101 512 Mar 5 19:36 barrnet drwxrwsr-x 4 172 101 512 Mar 27 23:13 db drwxrwsr-x 13 172 101 512 Mar 27 23:23 dos drwxrwsr-x 7 172 101 512 Mar 24 19:17 mac -rw-rw-r-- 1 172 101 217 Feb 28 23:49 readme.doc drwxrwsr-x 3 172 101 512 Jan 23 21:58 sri-nic drwxrwsr-x 3 172 101 512 Mar 30 07:12 unix-hacks drwxr-sr-x 2 172 101 512 Apr 21 01:29 vms 493 bytes in 4 seconds--984 bps Since the programs you desire are in the dos directory the following will get you there and the dir command will show you what is available *cd dos <CWD command successful. *dir <PORT command successful. <Opening ASCII mode data connection for /bin/ls (0 bytes). <Transfer complete. total 12 drwxrwsr-x 2 172 101 512 Mar 23 22:50 alx3 drwxrwxr-x 2 172 10 512 Mar 1 00:15 dearchive drwxrwxr-x 2 172 10 512 Feb 23 18:07 gel drwxrwxr-x 2 172 10 512 Mar 1 00:15 molecule drwxrwxr-x 2 172 10 512 Mar 14 18:22 mskermit drwxrwxr-x 2 172 10 512 Feb 25 00:56 oligo drwxrwxr-x 2 172 10 512 Apr 13 19:19 pcfold drwxrwxr-x 2 172 10 512 Feb 23 19:37 plasmid -rw-rw-r-- 1 172 101 868 Mar 27 23:23 readme.doc drwxrwxr-x 2 172 10 512 Mar 20 21:58 seqaid drwxrwxr-x 2 172 10 512 Feb 24 22:34 tdalign drwxrwxr-x 2 172 10 512 Jan 24 20:36 util 746 bytes in 6 seconds--992 bps The dearchiving programs are in the dearchive directory, so do the following: *cd dearchive <CWD command successful. *dir <PORT command successful. <Opening ASCII mode data connection for /bin/ls (0 bytes). <Transfer complete. total 375 -rw-rw-r-- 1 172 10 190511 Feb 28 00:26 dearchiv.uue -rw-rw-r-- 1 172 10 119598 Feb 28 00:01 pk361.exe -rw-rw-r-- 1 172 10 15112 Feb 27 23:53 pkunpak.exe -rw-rw-r-- 1 172 10 3901 Feb 28 21:26 readme.doc -rw-rw-r-- 1 172 10 1987 Feb 27 23:41 uudecode.bas -rw-rw-r-- 1 172 10 3089 Feb 27 23:34 uudecode.c -rw-rw-r-- 1 172 10 10626 Feb 27 23:43 uudecode.exe -rw-rw-r-- 1 172 10 668 Feb 27 23:41 uuencdec.doc -rw-rw-r-- 1 172 10 10140 Feb 27 23:42 uuencode.exe 605 bytes in 5 seconds--968 bps You can type help to see the avaiable commands or just go and use the ftp command BGET to transfer the .exe files to your host computer. Note that since the files you want are .exe, you should transfer them in binary mode, thus use bget instead of just get. Once you have transfered the binary files you want to your host computer you can end the ftp session by typing exit to return to your VAX and see the usual $ prompt as follows: *exit $ The problem now is to transfer the binary files from the VAX to your PC. Here you MUST remember that they are binary files and that any transfer mode MUST BE BINARY. You'll have to figure this out yourself depending on what terminal emulator you are using. While we're at it, the BIONET staff should be commended for putting up this service for us. FTP is a very powerful tool for file transfer and amazingly fast and much simpler to use than file servers. Good luck, Bruce A. Roe University of Oklahoma BROE@aardvark.ucs.uoknor.edu -------
SYEH@BIONET-20.BIO.NET (Spencer Yeh) (04/24/89)
Dear John and Bruce,
I'd like to thank Bruce for responding to John Hilfinger regarding the
anonymous FTP directories on NET.BIO.NET.
Just to clarify a few points that have come up over the past few
weeks:
1. Anonymous FTP is generally a two-step procedure:
A. Transfer files by FTP from NET.BIO.NET to your local
mainframe.
B. Download the files from your local mainframe to your PC.
1.5 Most files are in a ASCII TEXT form. This applies to ".doc", ".uue" and
".hqx" files. The exceptions are explained
in the "readme.doc" files in each directory.
2. Please be aware that you must use BINARY file transfers for any
*.exe files!!!
3. *.uue files on the BIONET archives are BOTH UUENCODED and ARC'ed.
Once downloaded to your PC you must first UUDECODE and then
PKUNPAK.
4. You CAN substitute ARC routines for de-ARC'ing the .arc files
since they were encoded using the -oct option of PKARC. This means
that no "squashing" was performed.
5. If you ONLY have a BIONET account and NOT an account on your local
campus mainframe, please DO NOT FTP the bionet archives from
NET.BIO.NET to your BIONET account. That only moves the files 10 ft.
across our machine room in California. Most of the smaller software
packages are ALREADY available on the DEC-2065 in the <pc-software.*>
directories. Please read HELP SOFTWARE for details. The cost
to us for downloading (Kermitting)
large software packages is prohibitive. In
these situations we ask that BIONET users obtain the software by
postal mail. Send a stamped, self-addressed return envelope with
a FORMATTED diskette (state capacity), and your request to:
BIONET Administrator
BIONET/ IntelliGenetics
700 East El Camino Real, Suite 300
Mountain View, CA 94040
Hopes this clarifies some confusion that has occurred.
Sincerely,
Spencer Yeh Internet: bionet@bionet-20.bio.net
Applications Analyst (for BIONET issues)
BIONET
(415) 324-4363
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